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commands.txt
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/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Celiac_disease-Trynka2011-35_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GeneAtlas2004/GeneAtlas2004.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_GeneAtlas2004_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Celiac_disease-Trynka2011-35_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/ImmGen/ImmGen2012.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_ImmGen2012_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Celiac_disease-Trynka2011-35_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GO/GO2013.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_GO2013_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/HDL_cholesterol-Teslovich2010-46_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GeneAtlas2004/GeneAtlas2004.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_GeneAtlas2004_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/HDL_cholesterol-Teslovich2010-46_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/ImmGen/ImmGen2012.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_ImmGen2012_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/HDL_cholesterol-Teslovich2010-46_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GO/GO2013.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_GO2013_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Multiple_sclerosis-IMSGC-51_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GeneAtlas2004/GeneAtlas2004.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_GeneAtlas2004_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Multiple_sclerosis-IMSGC-51_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/ImmGen/ImmGen2012.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_ImmGen2012_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Multiple_sclerosis-IMSGC-51_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GO/GO2013.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_GO2013_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Red_blood_cell_count-Harst2012-45_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GeneAtlas2004/GeneAtlas2004.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_GeneAtlas2004_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Red_blood_cell_count-Harst2012-45_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/ImmGen/ImmGen2012.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_ImmGen2012_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea --snps /home/kamil/work/snpsea/data/manuscript/Red_blood_cell_count-Harst2012-45_SNPs.gwas --gene-matrix /home/kamil/work/snpsea/data/GO/GO2013.gct.gz --gene-intervals /home/kamil/work/snpsea/data/NCBI/NCBIgenes2013.bed.gz --out out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_GO2013_total --score total --snp-intervals /home/kamil/work/snpsea/data/TGP/TGP2011-r2_0.5-hapmap_3-EUR.bed.gz --null-snps /home/kamil/work/snpsea/data/Lango2010/Lango2010.txt.gz --slop 1e5 --threads 6 --null-snpsets 0 --min-observations 100 --max-iterations 1e7
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Celiac_disease-Trynka2011-35_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/HDL_cholesterol-Teslovich2010-46_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Multiple_sclerosis-IMSGC-51_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_GeneAtlas2004_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_ImmGen2012_total
/home/kamil/work/snpsea/bin/snpsea-barplot out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_GO2013_total
/home/kamil/work/snpsea/bin/snpsea-heatmap out/manuscript_20140325/Red_blood_cell_count-Harst2012-45_SNPs_GO2013_total